Mercurial > repos > george-weingart > metaphlan2_hutlab

changeset 14:e2de1c761341 draft default tip

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Uploaded
author george-weingart
date Mon, 25 Apr 2016 01:04:05 -0400
parents ef38bf0b3208
children
files metaphlan2_hutlab/metaphlan2.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/metaphlan2_hutlab/metaphlan2.xml	Mon Apr 25 00:58:36 2016 -0400
+++ b/metaphlan2_hutlab/metaphlan2.xml	Mon Apr 25 01:04:05 2016 -0400
@@ -3,8 +3,8 @@
 
 	<description>metagenomic profiler V2</description>
 	<command interpreter="python">metaphlan2.py $input 
-		--mpa_pkl   $METAPHLAN2_PATH/db_v20/mpa_v20_m200.pkl    
-		--bowtie2db $METAPHLAN2_PATH/db_v20/mpa_v20_m200 
+		--mpa_pkl   \{$METAPHLAN2_PATH}/db_v20/mpa_v20_m200.pkl    
+		--bowtie2db \{$METAPHLAN2_PATH}/db_v20/mpa_v20_m200 
 		--input_type  fastq
 		--no_map 
 		--bt2_ps $PresetsForBowtie2